Query 032245
Match_columns 144
No_of_seqs 32 out of 34
Neff 2.3
Searched_HMMs 46136
Date Fri Mar 29 11:32:27 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032245.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/032245hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF03244 PSI_PsaH: Photosystem 100.0 4.7E-85 1E-89 506.0 -5.1 139 6-144 1-140 (140)
2 PLN00017 photosystem I reactio 100.0 1.6E-60 3.5E-65 348.0 7.7 90 44-133 1-90 (90)
3 PF12622 NpwBP: mRNA biogenesi 73.6 1.3 2.9E-05 29.2 0.5 10 52-61 1-10 (48)
4 PLN00046 photosystem I reactio 63.3 4.1 8.8E-05 32.7 1.3 78 14-94 10-95 (141)
5 cd07472 HmuY_like Bacterial pr 54.3 9.4 0.0002 28.2 1.9 20 53-72 16-42 (121)
6 cd01370 KISc_KIP3_like Kinesin 47.8 1.1E+02 0.0025 25.6 7.5 77 46-128 22-105 (338)
7 PHA02091 hypothetical protein 38.3 16 0.00035 26.4 1.0 33 59-91 36-70 (72)
8 PF14064 HmuY: HmuY protein; P 37.0 17 0.00036 26.9 0.9 20 53-72 4-32 (159)
9 cd01368 KISc_KIF23_like Kinesi 34.3 2E+02 0.0044 24.2 7.0 68 52-125 29-103 (345)
10 PF05757 PsbQ: Oxygen evolving 29.7 18 0.00039 29.9 0.0 45 96-142 29-73 (202)
11 PF08076 TetM_leader: Tetracyc 29.7 20 0.00044 22.0 0.3 6 52-57 13-18 (28)
12 PLN00170 photosystem II light- 29.3 47 0.001 28.5 2.5 46 15-60 10-57 (255)
13 cd02979 PHOX_C FAD-dependent P 28.3 45 0.00097 25.6 2.0 40 57-100 17-59 (167)
14 PF00225 Kinesin: Kinesin moto 28.1 88 0.0019 25.5 3.7 42 71-124 47-88 (335)
15 cd01371 KISc_KIF3 Kinesin moto 27.3 89 0.0019 26.0 3.7 53 67-125 44-96 (333)
16 cd00314 plant_peroxidase_like 26.3 22 0.00048 28.4 0.0 14 85-98 239-252 (255)
17 PF11607 DUF3247: Protein of u 26.2 21 0.00045 27.4 -0.1 21 19-40 37-57 (101)
18 KOG2948 Predicted metal-bindin 25.3 40 0.00087 30.3 1.4 27 71-97 53-81 (327)
19 KOG4525 Jacalin-like lectin do 25.1 56 0.0012 31.3 2.4 39 21-59 490-533 (614)
20 cd06396 PB1_NBR1 The PB1 domai 24.1 97 0.0021 22.4 3.0 22 46-67 2-23 (81)
21 PLN02729 PSII-Q subunit 22.4 55 0.0012 28.0 1.6 37 99-137 52-88 (220)
22 PLN02879 L-ascorbate peroxidas 21.3 37 0.0008 28.6 0.4 20 81-100 224-243 (251)
23 cd01365 KISc_KIF1A_KIF1B Kines 20.7 1.7E+02 0.0037 24.6 4.2 48 72-125 55-103 (356)
24 cd01367 KISc_KIF2_like Kinesin 20.6 1.3E+02 0.0028 25.0 3.4 37 83-125 63-99 (322)
25 cd01373 KISc_KLP2_like Kinesin 20.5 1.7E+02 0.0036 24.6 4.1 37 83-125 53-89 (337)
No 1
>PF03244 PSI_PsaH: Photosystem I reaction centre subunit VI; InterPro: IPR004928 Photosystem I, a membrane complex found in the chloroplasts of plants and cyanobacteria uses light energy to transfer electrons from plastocyanin to ferredoxin []. The electron transfer components of the photosystem include the primary electron donor chlorophyll P-700 and 5 electron acceptors: chlorophyll (A0), phylloquinone (A1) and three 4Fe-4S iron-sulphur centres, designated Fx, Fa and Fb. The role of this protein, subunit VI or PsaH, may be in docking of the light harvesting complex I antenna to the core complex.; GO: 0015979 photosynthesis, 0009522 photosystem I, 0009538 photosystem I reaction center; PDB: 2WSF_H 2WSE_H 2WSC_H 2O01_H.
Probab=100.00 E-value=4.7e-85 Score=506.03 Aligned_cols=139 Identities=84% Similarity=1.318 Sum_probs=58.0
Q ss_pred hhhhhccc-cccccccCCCCCceeeeccCccccCCCCcccceeEeeeCCeeeeeeccCCCCCcccceeeccCCCCCCChh
Q 032245 6 TIAAVQPA-TIKGLGGSSLAGTKLTVKPTRQSFRPKSFKAGAVVAKYGDKSVYFDLEDLGNTTGQWDLYGSDAPSPYNSL 84 (144)
Q Consensus 6 ~~~~~~~~-~v~gl~gSs~~g~kl~~kp~~~~~r~~~~ra~~v~AKYGdkSvYFDL~Di~nTTG~WDlYGsDaps~Yn~l 84 (144)
++++|||+ +||||+||||+|+||+|||++++.|++++|+++|+||||||||||||+|||||||||||||+|+|||||+|
T Consensus 1 ~~a~~~~~~~~~gla~ss~~g~Kl~~~p~~~~~r~~~~ra~~v~AKYGdkSvYFDL~Di~nTTG~WDlYGsD~ps~Yn~l 80 (140)
T PF03244_consen 1 TLAAVQPTAAVKGLAGSSLSGTKLAVKPARQSFRRRNRRAGAVVAKYGDKSVYFDLEDIENTTGQWDLYGSDAPSPYNPL 80 (140)
T ss_dssp --------------------------------------------------------S----SS-TTSS--SSSSS----S
T ss_pred CcceeecccccccccccccccceEeecccccccccccccccceeeecccceeEEehhhccCCcccceecccCCCCCCCHH
Confidence 57899999 99999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhhccchhhHHHHHHHHHhCCceEEEeecccCCcccccccCCCCCCCCCCCCCC
Q 032245 85 QSKFFETFAAPFTKRGLLLKFLILGGGSTLAYFSATASGDILPIKKGPQLPPKLGPRGKI 144 (144)
Q Consensus 85 QskFFe~fA~~ftkR~lllkfl~LgG~~~l~y~ga~as~D~LPIk~GPQ~pp~~GPRgki 144 (144)
|+||||+||+||||||+|||||+|||+++|+|+|+++++|+||||+|||+||++||||||
T Consensus 81 QskFFe~fA~~ftkRglllkfl~lgG~~~~~~~ga~~s~D~LPIk~GPq~pp~~GPRgki 140 (140)
T PF03244_consen 81 QSKFFETFAAPFTKRGLLLKFLALGGGSTLAYFGAKASKDLLPIKKGPQQPPKLGPRGKI 140 (140)
T ss_dssp --SSSSSSS-TTSSSTTTSTTTTTTGGGTTTTTTST-SSS-SS---S--SS--SSSS---
T ss_pred HHHHHHHHhcchhhHHHHHHHHHhcCcceEEEEcccCcccccccccCCCCCCCCCCCCCC
Confidence 999999999999999999999999999999999999999999999999999999999998
No 2
>PLN00017 photosystem I reaction centre subunit VI; Provisional
Probab=100.00 E-value=1.6e-60 Score=348.01 Aligned_cols=90 Identities=84% Similarity=1.295 Sum_probs=88.7
Q ss_pred cceeEeeeCCeeeeeeccCCCCCcccceeeccCCCCCCChhHHHHHHHhhccchhhHHHHHHHHHhCCceEEEeecccCC
Q 032245 44 AGAVVAKYGDKSVYFDLEDLGNTTGQWDLYGSDAPSPYNSLQSKFFETFAAPFTKRGLLLKFLILGGGSTLAYFSATASG 123 (144)
Q Consensus 44 a~~v~AKYGdkSvYFDL~Di~nTTG~WDlYGsDaps~Yn~lQskFFe~fA~~ftkR~lllkfl~LgG~~~l~y~ga~as~ 123 (144)
+++|+||||||||||||+|||||||+|||||+|+|||||++|+||||+||++|||||+|||||+|+|+++|+|+|+++++
T Consensus 1 a~~v~AKYGe~SvYFDL~Di~nTTGsWDlYG~d~~srY~~~QskFFe~~A~~~tkR~~l~~fl~l~g~~~~~~~g~~~~~ 80 (90)
T PLN00017 1 AGAVSAKYGDKSVYFDLGDLENTTGSWDLYGSDAPSRYNPLQSKFFETFAAPFTKRGLLLKFLALGGGSALAYVGAKGSK 80 (90)
T ss_pred CcccccccCcceeEEEhhhhccCcccceeeccCCCCCCChHHHHHHHHHhhhhhHHHHHHHHHHHcCcceEEEecccCcc
Confidence 47899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccccccCCC
Q 032245 124 DILPIKKGPQ 133 (144)
Q Consensus 124 D~LPIk~GPQ 133 (144)
|+||||+|||
T Consensus 81 d~LPI~~GPq 90 (90)
T PLN00017 81 DALPIKKGPQ 90 (90)
T ss_pred cccccccCCC
Confidence 9999999998
No 3
>PF12622 NpwBP: mRNA biogenesis factor
Probab=73.64 E-value=1.3 Score=29.16 Aligned_cols=10 Identities=50% Similarity=0.949 Sum_probs=8.4
Q ss_pred CCeeeeeecc
Q 032245 52 GDKSVYFDLE 61 (144)
Q Consensus 52 GdkSvYFDL~ 61 (144)
|++|||||=+
T Consensus 1 ~~kSiyydP~ 10 (48)
T PF12622_consen 1 PEKSIYYDPE 10 (48)
T ss_pred CCcceecCCc
Confidence 7899999953
No 4
>PLN00046 photosystem I reaction center subunit O; Provisional
Probab=63.28 E-value=4.1 Score=32.69 Aligned_cols=78 Identities=29% Similarity=0.309 Sum_probs=37.5
Q ss_pred cccccccCCCCCceeeeccCcc-ccCCCCcccceeEeeeCCeeeeeeccCCCCC--cccceeeccCCCCC---C--ChhH
Q 032245 14 TIKGLGGSSLAGTKLTVKPTRQ-SFRPKSFKAGAVVAKYGDKSVYFDLEDLGNT--TGQWDLYGSDAPSP---Y--NSLQ 85 (144)
Q Consensus 14 ~v~gl~gSs~~g~kl~~kp~~~-~~r~~~~ra~~v~AKYGdkSvYFDL~Di~nT--TG~WDlYGsDaps~---Y--n~lQ 85 (144)
+|.||++++++-. ........ .+++.+.|+...++-=|++. ||=+=+... -=---|.|=-+||- | |+|-
T Consensus 10 tV~gL~~~sl~~~-~~~ss~f~~~~~~~~~~~~~~~a~~~~~t--F~rDWLr~d~~V~~~gl~GW~~PS~ipa~~g~sL~ 86 (141)
T PLN00046 10 TVSGLGSSSLSAP-RRLSSGFVKGPVTVRRRAVLARASGSKKT--FDRDWLRKDLNVIGFGLIGWLAPSSIPAIGGNSLT 86 (141)
T ss_pred HhhhccccCcccc-cccccccccCcccccchhhhhhhcccccc--cchhhhhcccceeeeeeeeeeccccccccCCchhH
Confidence 7889999988652 11111111 12333335554445446655 873212111 01123444445553 3 3566
Q ss_pred HHHHHHhhc
Q 032245 86 SKFFETFAA 94 (144)
Q Consensus 86 skFFe~fA~ 94 (144)
--||+....
T Consensus 87 glF~~sIg~ 95 (141)
T PLN00046 87 GLFFDSIGT 95 (141)
T ss_pred HHHHHHHHH
Confidence 678877654
No 5
>cd07472 HmuY_like Bacterial proteins similar to Porphyromonas gingivalis HmuY. HmuY is a hemophore that scavenges heme from infected hosts and delivers it to the outer membrane receptor HmuR. Related but uncharacterized proteins do not appear to share the specific heme-binding site.
Probab=54.29 E-value=9.4 Score=28.16 Aligned_cols=20 Identities=40% Similarity=0.772 Sum_probs=15.1
Q ss_pred CeeeeeeccCCCC-------Cccccee
Q 032245 53 DKSVYFDLEDLGN-------TTGQWDL 72 (144)
Q Consensus 53 dkSvYFDL~Di~n-------TTG~WDl 72 (144)
.+-|||||++-+- .+-.||+
T Consensus 16 ~~wvYf~l~t~~~v~~~~~~~~~~WDI 42 (121)
T cd07472 16 TKWVYFSLETGATVTVTDAENSTDWDI 42 (121)
T ss_pred CceEEEECcCCCEEecCCcCCCCCccE
Confidence 8999999998532 2357997
No 6
>cd01370 KISc_KIP3_like Kinesin motor domain, KIP3-like subgroup. The yeast kinesin KIP3 plays a role in positioning the mitotic spindle. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-coil domain close to a sec
Probab=47.78 E-value=1.1e+02 Score=25.57 Aligned_cols=77 Identities=22% Similarity=0.254 Sum_probs=48.0
Q ss_pred eeEeeeCCeeeeeeccCCCC-------CcccceeeccCCCCCCChhHHHHHHHhhccchhhHHHHHHHHHhCCceEEEee
Q 032245 46 AVVAKYGDKSVYFDLEDLGN-------TTGQWDLYGSDAPSPYNSLQSKFFETFAAPFTKRGLLLKFLILGGGSTLAYFS 118 (144)
Q Consensus 46 ~v~AKYGdkSvYFDL~Di~n-------TTG~WDlYGsDaps~Yn~lQskFFe~fA~~ftkR~lllkfl~LgG~~~l~y~g 118 (144)
.++.--.++.+-+|-.+-.. ..+....|--|.=-.-+..|..+|+..+.|+- -. ++=|=-++|..+|
T Consensus 22 ~~v~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~f~Fd~vf~~~~~q~~vf~~~~~plv-----~~-~~~G~n~~i~ayG 95 (338)
T cd01370 22 RVVKVVDDRMLVFDPKDEEDAFRNLRARRNKELKYSFDRVFDETSTQEEVYENTTKPLV-----DG-VLNGYNATVFAYG 95 (338)
T ss_pred eEEEEcCCCEEEEcCCcccccccchhcccCCceEEEeccccCCCCCHHHHHHHHHHHHH-----HH-HHCCCCceEEeeC
Confidence 44444566777777655322 23345555555544445679999999887753 22 2335556888889
Q ss_pred cccCCccccc
Q 032245 119 ATASGDILPI 128 (144)
Q Consensus 119 a~as~D~LPI 128 (144)
.++||----+
T Consensus 96 qtGSGKTyTm 105 (338)
T cd01370 96 ATGAGKTHTM 105 (338)
T ss_pred CCCCCCeEEE
Confidence 9999865443
No 7
>PHA02091 hypothetical protein
Probab=38.34 E-value=16 Score=26.41 Aligned_cols=33 Identities=30% Similarity=0.573 Sum_probs=28.5
Q ss_pred eccCCCCCcccce--eeccCCCCCCChhHHHHHHH
Q 032245 59 DLEDLGNTTGQWD--LYGSDAPSPYNSLQSKFFET 91 (144)
Q Consensus 59 DL~Di~nTTG~WD--lYGsDaps~Yn~lQskFFe~ 91 (144)
.|.=|.|.-|-|- +||.--..+---.|.+|||-
T Consensus 36 ~l~ii~~d~~~w~lnvygp~~~~~i~~~~~~~fev 70 (72)
T PHA02091 36 ELQIIQRDRGMWTLNVYGPLGKAQICRDQQKFFEV 70 (72)
T ss_pred eEEEEecCCceEEEEeecccchhhcchhHHhhhcc
Confidence 4667899999995 69999999999999999984
No 8
>PF14064 HmuY: HmuY protein; PDB: 3H8T_A 3U22_A.
Probab=37.03 E-value=17 Score=26.95 Aligned_cols=20 Identities=40% Similarity=0.743 Sum_probs=13.9
Q ss_pred CeeeeeeccCC---------CCCccccee
Q 032245 53 DKSVYFDLEDL---------GNTTGQWDL 72 (144)
Q Consensus 53 dkSvYFDL~Di---------~nTTG~WDl 72 (144)
++-|||||++= ..++..|||
T Consensus 4 ~~wvY~~l~~g~~~~~~~~~~~~~~~WDi 32 (159)
T PF14064_consen 4 TNWVYFDLETGAQVTVTDEAPAESTDWDI 32 (159)
T ss_dssp TEEEEEETTTTEEEECT-TTGGG-TT-SE
T ss_pred CccEEEECCCCcEeeccccccCCCCCccE
Confidence 46799999863 467889998
No 9
>cd01368 KISc_KIF23_like Kinesin motor domain, KIF23-like subgroup. Members of this group may play a role in mitosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-coil domain close to a second tubulin dimer, a
Probab=34.30 E-value=2e+02 Score=24.22 Aligned_cols=68 Identities=22% Similarity=0.246 Sum_probs=42.8
Q ss_pred CCeeeeeeccCC-------CCCcccceeeccCCCCCCChhHHHHHHHhhccchhhHHHHHHHHHhCCceEEEeecccCCc
Q 032245 52 GDKSVYFDLEDL-------GNTTGQWDLYGSDAPSPYNSLQSKFFETFAAPFTKRGLLLKFLILGGGSTLAYFSATASGD 124 (144)
Q Consensus 52 GdkSvYFDL~Di-------~nTTG~WDlYGsDaps~Yn~lQskFFe~fA~~ftkR~lllkfl~LgG~~~l~y~ga~as~D 124 (144)
.+++|.++..+- .|....+..|--|.==.-+.-|..+|+..+.|+-+. ++-|--++|..+|.++||-
T Consensus 29 ~~~~v~~~~~~~~~~~~~~~~~~~~~~~f~Fd~vf~~~~tq~~vy~~~~~p~v~~------~l~G~n~ti~aYGqtGSGK 102 (345)
T cd01368 29 NSTTIQLHPPKGSAARKSERNGGQKETKFSFSKVFGPNTTQKEFFEGTALPLVQD------LLKGKNSLLFTYGVTNSGK 102 (345)
T ss_pred CCCEEEEeCCccccccccccccCCCceEeecCeEECCCCCHHHHHHHHHHHHHHH------HhCCCceEEEEeCCCCCCC
Confidence 455565554332 223334555555544444578999999988776432 3346667899999999985
Q ss_pred c
Q 032245 125 I 125 (144)
Q Consensus 125 ~ 125 (144)
-
T Consensus 103 T 103 (345)
T cd01368 103 T 103 (345)
T ss_pred e
Confidence 4
No 10
>PF05757 PsbQ: Oxygen evolving enhancer protein 3 (PsbQ); InterPro: IPR008797 Oxygenic photosynthesis uses two multi-subunit photosystems (I and II) located in the cell membranes of cyanobacteria and in the thylakoid membranes of chloroplasts in plants and algae. Photosystem II (PSII) has a P680 reaction centre containing chlorophyll 'a' that uses light energy to carry out the oxidation (splitting) of water molecules, and to produce ATP via a proton pump. Photosystem I (PSI) has a P700 reaction centre containing chlorophyll that takes the electron and associated hydrogen donated from PSII to reduce NADP+ to NADPH. Both ATP and NADPH are subsequently used in the light-independent reactions to convert carbon dioxide to glucose using the hydrogen atom extracted from water by PSII, releasing oxygen as a by-product. PSII is a multisubunit protein-pigment complex containing polypeptides both intrinsic and extrinsic to the photosynthetic membrane [, ]. Within the core of the complex, the chlorophyll and beta-carotene pigments are mainly bound to the antenna proteins CP43 (PsbC) and CP47 (PsbB), which pass the excitation energy on to the reaction centre proteins D1 (Qb, PsbA) and D2 (Qa, PsbD) that bind all the redox-active cofactors involved in the energy conversion process. The PSII oxygen-evolving complex (OEC) oxidises water to provide protons for use by PSI, and consists of OEE1 (PsbO), OEE2 (PsbP) and OEE3 (PsbQ). The remaining subunits in PSII are of low molecular weight (less than 10 kDa), and are involved in PSII assembly, stabilisation, dimerisation, and photo-protection []. In PSII, the oxygen-evolving complex (OEC) is responsible for catalysing the splitting of water to O(2) and 4H+. The OEC is composed of a cluster of manganese, calcium and chloride ions bound to extrinsic proteins. In cyanobacteria there are five extrinsic proteins in OEC (PsbO, PsbP-like, PsbQ-like, PsbU and PsbV), while in plants there are only three (PsbO, PsbP and PsbQ), PsbU and PsbV having been lost during the evolution of green plants []. This family represents the PSII OEC protein PsbQ. Both PsbQ and PsbP (IPR002683 from INTERPRO) are regulators that are necessary for the biogenesis of optically active PSII. The crystal structure of PsbQ from spinach revealed a 4-helical bundle polypeptide. The distribution of positive and negative charges on the protein surface might explain the ability of PsbQ to increase the binding of chloride and calcium ions and make them available to PSII [].; GO: 0005509 calcium ion binding, 0015979 photosynthesis, 0009523 photosystem II, 0009654 oxygen evolving complex, 0019898 extrinsic to membrane; PDB: 1VYK_A 1NZE_A 3LS1_A 3LS0_A.
Probab=29.72 E-value=18 Score=29.86 Aligned_cols=45 Identities=24% Similarity=0.270 Sum_probs=2.7
Q ss_pred chhhHHHHHHHHHhCCceEEEeecccCCcccccccCCCCCCCCCCCC
Q 032245 96 FTKRGLLLKFLILGGGSTLAYFSATASGDILPIKKGPQLPPKLGPRG 142 (144)
Q Consensus 96 ftkR~lllkfl~LgG~~~l~y~ga~as~D~LPIk~GPQ~pp~~GPRg 142 (144)
-+||-.|-.|++.|-.+ .....+ ...+.-+|+.||+.||..|..|
T Consensus 29 ~~RRa~l~~l~a~~~~~-~~~~~~-~~a~~~~~~~~~~~p~~~~~~g 73 (202)
T PF05757_consen 29 TSRRAVLGSLLAAALAG-GSFAQA-AAAAAWAIKVGLPPPPSGNLPG 73 (202)
T ss_dssp ------------------------------S-EE-------------
T ss_pred ccHHHHHHHHHHHHHHh-hhcccc-cccchhhhccCCCCCCCCCCCC
Confidence 45555443355554333 222222 2223678999999999877544
No 11
>PF08076 TetM_leader: Tetracycline resistance determinant leader peptide; InterPro: IPR012992 The antibiotic tetracycline has a broad spectrum of activity, acting to inhibit bacterial protein synthesis by binding to the 30S ribosomal subunit, which prevents the association of the aminoacyl-tRNA to the ribosomal acceptor A site. Tetracycline binding is reversible, therefore diluting out the antibiotic can reverse its effects. Tetracycline resistance genes are often located on mobile elements, such as plasmids, transposons and/or conjugative transposons, which can sometimes be transferred between bacterial species. In certain cases, tetracycline can enhance the transfer of these elements, thereby promoting resistance amongst a bacterial colony. There are three types of tetracycline resistance: tetracycline efflux, ribosomal protection, and tetracycline modification [, ]: Tetracycline efflux proteins belong to the major facilitator superfamily. Efflux proteins are membrane-associated proteins that recognise and export tetracycline from the cell. They are found in both Gram-positive and Gram-negative bacteria []. There are at least 22 different tetracycline efflux proteins, grouped according to sequence similarity: Group 1 are Tet(A), Tet(B), Tet(C), Tet(D), Tet(E), Tet(G), Tet(H), Tet(J), Tet(Z) and Tet(30); Group 2 are Tet(K) and Tet(L); Group 3 are Otr(B) and Tcr(3); Group 4 is TetA(P); Group 5 is Tet(V). In addition, there are the efflux proteins Tet(31), Tet(33), Tet(V), Tet(Y), Tet(34), and Tet(35). Ribosomal protection proteins are cytoplasmic proteins that display homology with the elongation factors EF-Tu and EF-G. Protection proteins bind the ribosome, causing an alteration in ribosomal conformation that prevents tetracycline from binding. There are at least ten ribosomal protection proteins: Tet(M), Tet(O), Tet(S), Tet(W), Tet(32), Tet(36), Tet(Q), Tet(T), Otr(A), and TetB(P). Both Tet(M) and Tet(O) have ribosome-dependent GTPase activity, the hydrolysis of GTP providing the energy for the ribosomal conformational changes. Tetracycline modification proteins include the enzymes Tet(37) and Tet(X), both of which inactivate tetracycline. In addition, there are the tetracycline resistance proteins Tet(U) and Otr(C). The expression of several of these tet genes is controlled by a family of tetracycline transcriptional regulators known as TetR. TetR family regulators are involved in the transcriptional control of multidrug efflux pumps, pathways for the biosynthesis of antibiotics, response to osmotic stress and toxic chemicals, control of catabolic pathways, differentiation processes, and pathogenicity []. The TetR proteins identified in over 115 genera of bacteria and archaea share a common helix-turn-helix (HTH) structure in their DNA-binding domain. However, TetR proteins can work in different ways: they can bind a target operator directly to exert their effect (e.g. TetR binds Tet(A) gene to repress it in the absence of tetracycline), or they can be involved in complex regulatory cascades in which the TetR protein can either be modulated by another regulator or TetR can trigger the cellular response. This entry represents the tetracycline resistance leader peptide, which can be found in Tet(M) ribosomal protection proteins. A short open reading frame corresponding to a 28 amino acid peptide, which contains a number of inverted repeat sequences was found immediately upstream of tet(M). Transcriptional analyses has found that expression of tet(M) resulted from an extension of a small transcript representing the upstream leader region into the resistance determinant. Therefore, this leader sequence is responsible for transcriptional attenuation and thus regulation of the transcription of tet(M) [].
Probab=29.69 E-value=20 Score=22.02 Aligned_cols=6 Identities=67% Similarity=1.187 Sum_probs=4.4
Q ss_pred CCeeee
Q 032245 52 GDKSVY 57 (144)
Q Consensus 52 GdkSvY 57 (144)
||+|+|
T Consensus 13 ~D~S~y 18 (28)
T PF08076_consen 13 SDKSIY 18 (28)
T ss_pred Ccccee
Confidence 677777
No 12
>PLN00170 photosystem II light-harvesting-Chl-binding protein Lhcb6 (CP24); Provisional
Probab=29.30 E-value=47 Score=28.48 Aligned_cols=46 Identities=22% Similarity=0.198 Sum_probs=26.4
Q ss_pred ccccccCCCCCceeee--ccCccccCCCCcccceeEeeeCCeeeeeec
Q 032245 15 IKGLGGSSLAGTKLTV--KPTRQSFRPKSFKAGAVVAKYGDKSVYFDL 60 (144)
Q Consensus 15 v~gl~gSs~~g~kl~~--kp~~~~~r~~~~ra~~v~AKYGdkSvYFDL 60 (144)
+.||+.|.++|.|=+. +++....+..++|...|+|-=.++..+||-
T Consensus 10 ~~~~~ssf~~g~~~~~~~~~~~~~~~~~~~~~~v~~~a~~~~k~w~p~ 57 (255)
T PLN00170 10 LNGLGSSFLTGGKRSLALLVGTGAAKVGARTLLVVAAAAQPKKSWIPA 57 (255)
T ss_pred HhhccCcccccchhhhcccccccccccccceeEEEEeccCCCccccCC
Confidence 4799999998887332 234333444443444443333566677774
No 13
>cd02979 PHOX_C FAD-dependent Phenol hydoxylase (PHOX) family, C-terminal TRX-fold domain; composed of proteins similar to PHOX from the aerobic topsoil yeast Trichosporon cutaneum. PHOX is a flavoprotein monooxygenase that catalyzes the hydroxylation of phenol and simple phenol derivatives in the ortho position with the consumption of NADPH and oxygen. This is the first step in the biodegradation and detoxification of phenolic compounds. PHOX contains three domains. The substrate and FAD/NAD(P) binding sites are contained in the first two domains, which adopt a complicated folding pattern. The third or C-terminal domain contains a TRX fold and is involved in dimerization. The functional unit of PHOX is a dimer, although active tetramers of the recombinant enzyme can be isolated when overproduced in bacteria.
Probab=28.25 E-value=45 Score=25.60 Aligned_cols=40 Identities=18% Similarity=0.287 Sum_probs=28.8
Q ss_pred eeeccCCCCCcccceee---ccCCCCCCChhHHHHHHHhhccchhhH
Q 032245 57 YFDLEDLGNTTGQWDLY---GSDAPSPYNSLQSKFFETFAAPFTKRG 100 (144)
Q Consensus 57 YFDL~Di~nTTG~WDlY---GsDaps~Yn~lQskFFe~fA~~ftkR~ 100 (144)
--+|+|.--.+|+|.+| |...+ +.|.+..+.+++-|..-+
T Consensus 17 p~~L~~~~~adGrfrI~vFagd~~~----~~~~~~l~~~~~~L~~~~ 59 (167)
T cd02979 17 PVHLGHRLPADGRFRIYVFAGDIAP----AQQKSRLTQLCDALDSPD 59 (167)
T ss_pred CHhHhhhccCCCCEEEEEEcCCCCc----hhHHHHHHHHHHHHcCCc
Confidence 34788888889999998 33333 677778888887775543
No 14
>PF00225 Kinesin: Kinesin motor domain; InterPro: IPR001752 Kinesin [, , ] is a microtubule-associated force-producing protein that may play a role in organelle transport. The kinesin motor activity is directed toward the microtubule's plus end. Kinesin is an oligomeric complex composed of two heavy chains and two light chains. The maintenance of the quaternary structure does not require interchain disulphide bonds. The heavy chain is composed of three structural domains: a large globular N-terminal domain which is responsible for the motor activity of kinesin (it is known to hydrolyse ATP, to bind and move on microtubules), a central alpha-helical coiled coil domain that mediates the heavy chain dimerisation; and a small globular C-terminal domain which interacts with other proteins (such as the kinesin light chains), vesicles and membranous organelles. A number of proteins have been recently found that contain a domain similar to that of the kinesin 'motor' domain [, ]: Drosophila melanogaster claret segregational protein (ncd). Ncd is required for normal chromosomal segregation in meiosis, in females, and in early mitotic divisions of the embryo. The ncd motor activity is directed toward the microtubule's minus end. Homo sapiens CENP-E []. CENP-E is a protein that associates with kinetochores during chromosome congression, relocates to the spindle midzone at anaphase, and is quantitatively discarded at the end of the cell division. CENP-E is probably an important motor molecule in chromosome movement and/or spindle elongation. H. sapiens mitotic kinesin-like protein-1 (MKLP-1), a motor protein whose activity is directed toward the microtubule's plus end. Saccharomyces cerevisiae KAR3 protein, which is essential for nuclear fusion during mating. KAR3 may mediate microtubule sliding during nuclear fusion and possibly mitosis. S. cerevisiae CIN8 and KIP1 proteins which are required for the assembly of the mitotic spindle. Both proteins seem to interact with spindle microtubules to produce an outwardly directed force acting upon the poles. Emericella nidulans (Aspergillus nidulans) bimC, which plays an important role in nuclear division. A. nidulans klpA. Caenorhabditis elegans unc-104, which may be required for the transport of substances needed for neuronal cell differentiation. C. elegans osm-3. Xenopus laevis Eg5, which may be involved in mitosis. Arabidopsis thaliana KatA, KatB and katC. Chlamydomonas reinhardtii FLA10/KHP1 and KLP1. Both proteins seem to play a role in the rotation or twisting of the microtubules of the flagella. C. elegans hypothetical protein T09A5.2. The kinesin motor domain is located in the N-terminal part of most of the above proteins, with the exception of KAR3, klpA, and ncd where it is located in the C-terminal section. The kinesin motor domain contains about 330 amino acids. An ATP-binding motif of type A is found near position 80 to 90, the C-terminal half of the domain is involved in microtubule-binding.; GO: 0003777 microtubule motor activity, 0005524 ATP binding, 0007018 microtubule-based movement; PDB: 3NWN_A 2Y5W_A 2Y65_C 3BFN_A 2WBE_C 2ZFL_A 2ZFI_A 1I6I_A 2ZFM_A 1IA0_K ....
Probab=28.05 E-value=88 Score=25.49 Aligned_cols=42 Identities=24% Similarity=0.481 Sum_probs=29.5
Q ss_pred eeeccCCCCCCChhHHHHHHHhhccchhhHHHHHHHHHhCCceEEEeecccCCc
Q 032245 71 DLYGSDAPSPYNSLQSKFFETFAAPFTKRGLLLKFLILGGGSTLAYFSATASGD 124 (144)
Q Consensus 71 DlYGsDaps~Yn~lQskFFe~fA~~ftkR~lllkfl~LgG~~~l~y~ga~as~D 124 (144)
.+|+.++. |..+||....|+-.. ++-|--++|..+|.++|+-
T Consensus 47 ~vf~~~~~------q~~vy~~~~~~~v~~------~l~G~n~~i~ayG~tgSGK 88 (335)
T PF00225_consen 47 RVFDEDAT------QEDVYEEVVSPLVDS------VLDGYNATIFAYGQTGSGK 88 (335)
T ss_dssp EEEETTST------HHHHHHHHTHHHHHH------HHTT-EEEEEEEESTTSSH
T ss_pred eEECCCCC------HHHHHHHHHHHHHHH------hhcCCceEEEeeccccccc
Confidence 35676665 999999988776543 2245455888999998864
No 15
>cd01371 KISc_KIF3 Kinesin motor domain, kinesins II or KIF3_like proteins. Subgroup of kinesins, which form heterotrimers composed of 2 kinesins and one non-motor accessory subunit. Kinesins II play important roles in ciliary transport, and have been implicated in neuronal transport, melanosome transport, the secretory pathway, and mitosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In this group the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain
Probab=27.35 E-value=89 Score=26.02 Aligned_cols=53 Identities=21% Similarity=0.256 Sum_probs=39.2
Q ss_pred cccceeeccCCCCCCChhHHHHHHHhhccchhhHHHHHHHHHhCCceEEEeecccCCcc
Q 032245 67 TGQWDLYGSDAPSPYNSLQSKFFETFAAPFTKRGLLLKFLILGGGSTLAYFSATASGDI 125 (144)
Q Consensus 67 TG~WDlYGsDaps~Yn~lQskFFe~fA~~ftkR~lllkfl~LgG~~~l~y~ga~as~D~ 125 (144)
+.....|--|.--..+..|..+||..+.|+- .-++-|--++|..+|.++||--
T Consensus 44 ~~~~~~f~fd~vf~~~~~q~~vy~~~~~plv------~~~~~G~n~~i~ayG~tgSGKT 96 (333)
T cd01371 44 KEPPKVFTFDAVYDPNSTQEDVYNETARPLV------DSVLEGYNGTIFAYGQTGTGKT 96 (333)
T ss_pred cCCCceeeeccccCCCccHHHHHHHHHHHHH------HHHhCCCceeEEecCCCCCCCc
Confidence 4556667777666667889999999988763 3344566678888999998765
No 16
>cd00314 plant_peroxidase_like Heme-dependent peroxidases similar to plant peroxidases. Along with animal peroxidases, these enzymes belong to a group of peroxidases containing a heme prosthetic group (ferriprotoporphyrin IX), which catalyzes a multistep oxidative reaction involving hydrogen peroxide as the electron acceptor. The plant peroxidase-like superfamily is found in all three kingdoms of life and carries out a variety of biosynthetic and degradative functions. Several sub-families can be identified. Class I includes intracellular peroxidases present in fungi, plants, archaea and bacteria, called catalase-peroxidases, that can exhibit both catalase and broad-spectrum peroxidase activities depending on the steady-state concentration of hydrogen peroxide. Catalase-peroxidases are typically comprised of two homologous domains that probably arose via a single gene duplication event. Class II includes ligninase and other extracellular fungal peroxidases, while class III is comprised
Probab=26.26 E-value=22 Score=28.45 Aligned_cols=14 Identities=57% Similarity=0.933 Sum_probs=12.6
Q ss_pred HHHHHHHhhccchh
Q 032245 85 QSKFFETFAAPFTK 98 (144)
Q Consensus 85 QskFFe~fA~~ftk 98 (144)
|..||+.|+..+.|
T Consensus 239 ~~~f~~~Fa~a~~K 252 (255)
T cd00314 239 QEKFFEDFAKAWIK 252 (255)
T ss_pred HHHHHHHHHHHHHH
Confidence 99999999988876
No 17
>PF11607 DUF3247: Protein of unknown function (DUF3247); InterPro: IPR021649 This family of proteins is the protein product of the gene XC5848 from Xanthomonas campestris. The protein has no known function however its structure has been determined. The protein adopts a Lsm fold however differences with the fold were observed at the N-terminal and internal regions []. ; PDB: 2E12_B.
Probab=26.17 E-value=21 Score=27.39 Aligned_cols=21 Identities=52% Similarity=0.795 Sum_probs=11.5
Q ss_pred ccCCCCCceeeeccCccccCCC
Q 032245 19 GGSSLAGTKLTVKPTRQSFRPK 40 (144)
Q Consensus 19 ~gSs~~g~kl~~kp~~~~~r~~ 40 (144)
-||++.|| +.++|+.|-+|-.
T Consensus 37 DGs~l~Gt-v~vrPtvQ~frD~ 57 (101)
T PF11607_consen 37 DGSMLRGT-VAVRPTVQQFRDA 57 (101)
T ss_dssp TS-EEEEE-ECC---EEEEE-T
T ss_pred CCCeeeee-eccccchhhhhCc
Confidence 47888887 7889988854444
No 18
>KOG2948 consensus Predicted metal-binding protein [General function prediction only]
Probab=25.29 E-value=40 Score=30.28 Aligned_cols=27 Identities=37% Similarity=0.669 Sum_probs=21.1
Q ss_pred eeeccCCC--CCCChhHHHHHHHhhccch
Q 032245 71 DLYGSDAP--SPYNSLQSKFFETFAAPFT 97 (144)
Q Consensus 71 DlYGsDap--s~Yn~lQskFFe~fA~~ft 97 (144)
||=|+=+| .||.-.|.-|||||--.+.
T Consensus 53 DVGg~yDp~~~ryDHHQr~F~ETfs~~~~ 81 (327)
T KOG2948|consen 53 DVGGVYDPEKKRYDHHQRGFFETFSPKYK 81 (327)
T ss_pred ecCccccccccccchhhhhhhhhcCCccc
Confidence 44455555 8999999999999986653
No 19
>KOG4525 consensus Jacalin-like lectin domain-containing protein [General function prediction only]
Probab=25.12 E-value=56 Score=31.30 Aligned_cols=39 Identities=21% Similarity=0.451 Sum_probs=24.4
Q ss_pred CCCCCceee-eccCccccCCCCccc----ceeEeeeCCeeeeee
Q 032245 21 SSLAGTKLT-VKPTRQSFRPKSFKA----GAVVAKYGDKSVYFD 59 (144)
Q Consensus 21 Ss~~g~kl~-~kp~~~~~r~~~~ra----~~v~AKYGdkSvYFD 59 (144)
-+-+|..+. |.|+..-.+.-+.|- -.+++-||||||.|-
T Consensus 490 r~~~gkei~lia~~~r~it~ir~~cg~aldg~~~~ygeEsvl~g 533 (614)
T KOG4525|consen 490 RGCNGKEIRLIAPSSRPITLIRLRCGQALDGLVAHYGEESVLEG 533 (614)
T ss_pred CCCCCceeeeeccccccceEEEEeccccccceEEEecccceeec
Confidence 345556665 456655433333333 458999999999873
No 20
>cd06396 PB1_NBR1 The PB1 domain is an essential part of NBR1 protein, next to BRCA1, a scaffold protein mediating specific protein-protein interaction with both titin protein kinase and with another scaffold protein p62. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. The NBR1 protein contains a type I PB1 domain.
Probab=24.11 E-value=97 Score=22.39 Aligned_cols=22 Identities=32% Similarity=0.363 Sum_probs=18.5
Q ss_pred eeEeeeCCeeeeeeccCCCCCc
Q 032245 46 AVVAKYGDKSVYFDLEDLGNTT 67 (144)
Q Consensus 46 ~v~AKYGdkSvYFDL~Di~nTT 67 (144)
.|.|.||++.+=|-+++-+|++
T Consensus 2 ~vKaty~~d~~rf~~~~~~~~~ 23 (81)
T cd06396 2 NLKVTYNGESQSFLVSDSENTT 23 (81)
T ss_pred EEEEEECCeEEEEEecCCCCCC
Confidence 5899999999999998855554
No 21
>PLN02729 PSII-Q subunit
Probab=22.45 E-value=55 Score=28.00 Aligned_cols=37 Identities=14% Similarity=-0.075 Sum_probs=20.6
Q ss_pred hHHHHHHHHHhCCceEEEeecccCCcccccccCCCCCCC
Q 032245 99 RGLLLKFLILGGGSTLAYFSATASGDILPIKKGPQLPPK 137 (144)
Q Consensus 99 R~lllkfl~LgG~~~l~y~ga~as~D~LPIk~GPQ~pp~ 137 (144)
|.++|.+.+.|=.+ ..+.++ +-.+.-+|+.||.+||+
T Consensus 52 rr~~lgl~a~~l~~-~s~~~~-~~A~~~~i~~~~P~P~p 88 (220)
T PLN02729 52 RRLALGLASIALIG-NSGNGV-SLAEDNGFWLDGPLPVP 88 (220)
T ss_pred HHHHHHHHHHHHhc-chhhhH-HHhcccCceeCCCCCCC
Confidence 45666666554111 112333 33445899999996654
No 22
>PLN02879 L-ascorbate peroxidase
Probab=21.31 E-value=37 Score=28.60 Aligned_cols=20 Identities=25% Similarity=0.501 Sum_probs=15.4
Q ss_pred CChhHHHHHHHhhccchhhH
Q 032245 81 YNSLQSKFFETFAAPFTKRG 100 (144)
Q Consensus 81 Yn~lQskFFe~fA~~ftkR~ 100 (144)
|-..|.+||+.||..+.|=+
T Consensus 224 ~A~d~~~F~~~Fa~Am~KL~ 243 (251)
T PLN02879 224 YAADEDAFFEDYTEAHLKLS 243 (251)
T ss_pred HhhCHHHHHHHHHHHHHHHH
Confidence 44568999999998877643
No 23
>cd01365 KISc_KIF1A_KIF1B Kinesin motor domain, KIF1_like proteins. KIF1A (Unc104) transports synaptic vesicles to the nerve terminal, KIF1B has been implicated in transport of mitochondria. Both proteins are expressed in neurons. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. In contrast to the majority of dimeric kinesins, most KIF1A/Unc104 kinesins are monomeric motors. A lysine-rich loop in KIF1A binds to the negatively charged C-terminus of tubulin and compensates for the lack of a second motor domain, allowing KIF1A to move processively.
Probab=20.71 E-value=1.7e+02 Score=24.64 Aligned_cols=48 Identities=23% Similarity=0.271 Sum_probs=33.0
Q ss_pred eeccC-CCCCCChhHHHHHHHhhccchhhHHHHHHHHHhCCceEEEeecccCCcc
Q 032245 72 LYGSD-APSPYNSLQSKFFETFAAPFTKRGLLLKFLILGGGSTLAYFSATASGDI 125 (144)
Q Consensus 72 lYGsD-aps~Yn~lQskFFe~fA~~ftkR~lllkfl~LgG~~~l~y~ga~as~D~ 125 (144)
+|+++ ...+=+.-|..+|+..+.|+-. -++-|=-.+|..+|.++||--
T Consensus 55 vf~~~~~~~~~~~tq~~vf~~~~~p~v~------~~l~G~n~~i~ayGqtGSGKT 103 (356)
T cd01365 55 SYWSHDSEDPHYASQEDVFEDLGRELLD------HAFEGYNVCLFAYGQTGSGKS 103 (356)
T ss_pred EecccCCCCCCCCCHHHHHHHHHHHHHH------HHhCCCceEEEEecCCCCCCe
Confidence 45554 2335557899999998877643 334555668888999998853
No 24
>cd01367 KISc_KIF2_like Kinesin motor domain, KIF2-like group. KIF2 is a protein expressed in neurons, which has been associated with axonal transport and neuron development; alternative splice forms have been implicated in lysosomal translocation. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In this subgroup the motor domain is found in the middle (M-type) of the protein chain. M-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second (KIF2 may be slower). To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and lo
Probab=20.60 E-value=1.3e+02 Score=25.05 Aligned_cols=37 Identities=19% Similarity=0.343 Sum_probs=27.5
Q ss_pred hhHHHHHHHhhccchhhHHHHHHHHHhCCceEEEeecccCCcc
Q 032245 83 SLQSKFFETFAAPFTKRGLLLKFLILGGGSTLAYFSATASGDI 125 (144)
Q Consensus 83 ~lQskFFe~fA~~ftkR~lllkfl~LgG~~~l~y~ga~as~D~ 125 (144)
.-|..+||..+.|+-.. ++-|--.+|..+|.++||--
T Consensus 63 ~~q~~vf~~~~~plv~~------~~~G~n~~i~ayGqtGSGKT 99 (322)
T cd01367 63 VTNEEVYRSTVKPLIPH------VFEGGVATCFAYGQTGSGKT 99 (322)
T ss_pred CCHHHHHHHHHHHHHHH------HhCCCceEEEeccCCCCCCc
Confidence 45899999988876544 23365668888899999855
No 25
>cd01373 KISc_KLP2_like Kinesin motor domain, KLP2-like subgroup. Members of this subgroup seem to play a role in mitosis and meiosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-coil domain close to a second
Probab=20.48 E-value=1.7e+02 Score=24.63 Aligned_cols=37 Identities=19% Similarity=0.345 Sum_probs=27.5
Q ss_pred hhHHHHHHHhhccchhhHHHHHHHHHhCCceEEEeecccCCcc
Q 032245 83 SLQSKFFETFAAPFTKRGLLLKFLILGGGSTLAYFSATASGDI 125 (144)
Q Consensus 83 ~lQskFFe~fA~~ftkR~lllkfl~LgG~~~l~y~ga~as~D~ 125 (144)
..|..+|+..+.|+- .-++-|--++|..+|.++||--
T Consensus 53 ~~q~~vy~~~~~p~v------~~~~~G~n~ti~aYGqTGSGKT 89 (337)
T cd01373 53 TNQEDVFQSVGKPLV------EDCLSGYNGSIFAYGQTGSGKT 89 (337)
T ss_pred CCHHHHHHHHHHHHH------HHHhCCCceeEEEeCCCCCCce
Confidence 469999999888743 3334566678888999998865
Done!